On the sensitivity of feature ranked lists for large-scale biological data
The problem of feature selection for large-scale genomic data, for example from DNA microarray experiments, is one of the fundamental and well-investigated problems in modern computational biology.From the computational point of view, a selected gene list should be characterized by good predictive p...
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| Format: | Article |
| Language: | English |
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AIMS Press
2013-03-01
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| Series: | Mathematical Biosciences and Engineering |
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| Online Access: | https://www.aimspress.com/article/doi/10.3934/mbe.2013.10.667 |
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| author | Danuta Gaweł Krzysztof Fujarewicz |
| author_facet | Danuta Gaweł Krzysztof Fujarewicz |
| author_sort | Danuta Gaweł |
| collection | DOAJ |
| description | The problem of feature selection for large-scale genomic data, for example from DNA microarray experiments, is one of the fundamental and well-investigated problems in modern computational biology.From the computational point of view, a selected gene list should be characterized by good predictive power and should be understood and well explained from the biological point of view.Recently, another feature of selected gene lists is increasingly investigated, namely their stability which measures how the content and/or the gene order change when the data are perturbed.In this paper we propose a new approach to analysis of gene list stability, termed the sensitivity index, that does not require any data perturbationand allows the gene list that is most reliable in a biological sense to be chosen. |
| format | Article |
| id | doaj-art-43aa432f33d4478b9560aec445643e94 |
| institution | Kabale University |
| issn | 1551-0018 |
| language | English |
| publishDate | 2013-03-01 |
| publisher | AIMS Press |
| record_format | Article |
| series | Mathematical Biosciences and Engineering |
| spelling | doaj-art-43aa432f33d4478b9560aec445643e942025-01-24T02:26:12ZengAIMS PressMathematical Biosciences and Engineering1551-00182013-03-0110366769010.3934/mbe.2013.10.667On the sensitivity of feature ranked lists for large-scale biological dataDanuta Gaweł0Krzysztof Fujarewicz1Silesian University of Technology, Institute of Automatic Control, Akademicka 16, 44-100 GliwiceSilesian University of Technology, Institute of Automatic Control, Akademicka 16, 44-100 GliwiceThe problem of feature selection for large-scale genomic data, for example from DNA microarray experiments, is one of the fundamental and well-investigated problems in modern computational biology.From the computational point of view, a selected gene list should be characterized by good predictive power and should be understood and well explained from the biological point of view.Recently, another feature of selected gene lists is increasingly investigated, namely their stability which measures how the content and/or the gene order change when the data are perturbed.In this paper we propose a new approach to analysis of gene list stability, termed the sensitivity index, that does not require any data perturbationand allows the gene list that is most reliable in a biological sense to be chosen.https://www.aimspress.com/article/doi/10.3934/mbe.2013.10.667feature rankingsensitivitylarge-scale datadna microarrays.feature selectiongene list stability |
| spellingShingle | Danuta Gaweł Krzysztof Fujarewicz On the sensitivity of feature ranked lists for large-scale biological data Mathematical Biosciences and Engineering feature ranking sensitivity large-scale data dna microarrays. feature selection gene list stability |
| title | On the sensitivity of feature ranked lists for large-scale biological data |
| title_full | On the sensitivity of feature ranked lists for large-scale biological data |
| title_fullStr | On the sensitivity of feature ranked lists for large-scale biological data |
| title_full_unstemmed | On the sensitivity of feature ranked lists for large-scale biological data |
| title_short | On the sensitivity of feature ranked lists for large-scale biological data |
| title_sort | on the sensitivity of feature ranked lists for large scale biological data |
| topic | feature ranking sensitivity large-scale data dna microarrays. feature selection gene list stability |
| url | https://www.aimspress.com/article/doi/10.3934/mbe.2013.10.667 |
| work_keys_str_mv | AT danutagaweł onthesensitivityoffeaturerankedlistsforlargescalebiologicaldata AT krzysztoffujarewicz onthesensitivityoffeaturerankedlistsforlargescalebiologicaldata |